Whole Genome Analysis of Two Pectobacterium Species Isolated from Blackleg Disease of Potato Occurred in Nagasaki Prefecture, Japan
Bibliographic record
Abstract
In Japan, Dickeya dianthicola, D. chrysanthemi, Pectobacterium atrosepticum, P. parmentieri, and P. brasiliense are known as blackleg disease pathogens of potato. A transient outbreak of the blackleg disease occurred in Nagasaki Prefecture, and the pathogens were identified as P. parmentieri and P. brasiliense. Because repetitive extragenic palindromic PCR showed clonal relatedness among strains in each species, two Nagasaki strains (NK5 and NK14) were selected as the representative strains, and their whole genome sequences were determined. Average nucleotide identity analysis supported the identification in the previous study. Multilocus sequence analysis with seven housekeeping genes indicated the relationship between NK14 and other strains isolated in Japan, Russia, China, Switzerland, Poland, and Belgium. NK5 was related to the strains from various geographic locations including Syria, China, Canada, South Korea, Netherlands, Algeria, South Africa, Mexico, and Belarus. Subsequently, core genome multilocus sequence typing was performed with publicly available sequences, indicating that NK14 and NK5 were most closely related to the strains Poland/Russian and Netherlands/Belarus/Russia, respectively. This study concerns the first phylogenetic analyses based on the whole genome sequences of Japanese strains of P. parmentieri and P. brasiliense, and contributes to the molecular epidemiological analysis of the pathogen of potato blackleg.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.001 |
| Bibliometrics | 0.000 | 0.002 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.001 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.000 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one teacher head, not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".